| Opportunities and challenges in long-read sequencing data analysis SL Amarasinghe, S Su, X Dong, L Zappia, ME Ritchie, Q Gouil Genome biology 21 (1), 30, 2020 | 1203 | 2020 |
| RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR CW Law, M Alhamdoosh, S Su, X Dong, L Tian, GK Smyth, ME Ritchie F1000Research 5, 2016 | 712 | 2016 |
| RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR CW Law, M Alhamdoosh, S Su, X Dong, L Tian, GK Smyth, ME Ritchie F1000Research 5, 2016 | 709 | 2016 |
| Why weight? Modelling sample and observational level variability improves power in RNA-seq analyses R Liu, AZ Holik, S Su, N Jansz, K Chen, HS Leong, ME Blewitt, ... Nucleic acids research 43 (15), e97-e97, 2015 | 463 | 2015 |
| Benchmarking single cell RNA-sequencing analysis pipelines using mixture control experiments L Tian, X Dong, S Freytag, KA Lê Cao, S Su, A JalalAbadi, ... Nature methods 16 (6), 479-487, 2019 | 273 | 2019 |
| Glimma: interactive graphics for gene expression analysis S Su, CW Law, C Ah-Cann, ML Asselin-Labat, ME Blewitt, ME Ritchie Bioinformatics 33 (13), 2050-2052, 2017 | 157 | 2017 |
| Deciphering the innate lymphoid cell transcriptional program C Seillet, LA Mielke, DB Amann-Zalcenstein, S Su, J Gao, FF Almeida, ... Cell reports 17 (2), 436-447, 2016 | 137 | 2016 |
| edgeR: a versatile tool for the analysis of shRNA-seq and CRISPR-Cas9 genetic screens Z Dai, JM Sheridan, LJ Gearing, DL Moore, S Su, S Wormald, S Wilcox, ... F1000Research 3, 2014 | 120 | 2014 |
| Comprehensive characterization of single-cell full-length isoforms in human and mouse with long-read sequencing L Tian, JS Jabbari, R Thijssen, Q Gouil, SL Amarasinghe, O Voogd, ... Genome biology 22, 1-24, 2021 | 107 | 2021 |
| scPipe: A flexible R/Bioconductor preprocessing pipeline for single-cell RNA-sequencing data L Tian, S Su, X Dong, D Amann-Zalcenstein, C Biben, A Seidi, DJ Hilton, ... PLoS computational biology 14 (8), e1006361, 2018 | 106 | 2018 |
| A divergent transcriptional landscape underpins the development and functional branching of MAIT cells HF Koay, S Su, D Amann-Zalcenstein, SR Daley, I Comerford, L Miosge, ... Science immunology 4 (41), eaay6039, 2019 | 83 | 2019 |
| Interconversion between tumorigenic and differentiated states in acute myeloid leukemia MD McKenzie, M Ghisi, EP Oxley, S Ngo, L Cimmino, C Esnault, R Liu, ... Cell stem cell 25 (2), 258-272. e9, 2019 | 78 | 2019 |
| Benchmarking UMI-based single-cell RNA-seq preprocessing workflows Y You, L Tian, S Su, X Dong, JS Jabbari, PF Hickey, ME Ritchie Genome biology 22 (1), 339, 2021 | 37 | 2021 |
| The long and the short of it: unlocking nanopore long-read RNA sequencing data with short-read differential expression analysis tools X Dong, L Tian, Q Gouil, H Kariyawasam, S Su, R De Paoli-Iseppi, ... NAR genomics and bioinformatics 3 (2), lqab028, 2021 | 34 | 2021 |
| Unique properties of a subset of human pluripotent stem cells with high capacity for self-renewal KX Lau, EA Mason, J Kie, DP De Souza, J Kloehn, D Tull, MJ McConville, ... Nature communications 11 (1), 2420, 2020 | 33 | 2020 |
| Clonal multi-omics reveals Bcor as a negative regulator of emergency dendritic cell development L Tian, S Tomei, J Schreuder, TS Weber, D Amann-Zalcenstein, DS Lin, ... Immunity 54 (6), 1338-1351. e9, 2021 | 31 | 2021 |
| Covering all your bases: incorporating intron signal from RNA-seq data S Lee, AY Zhang, S Su, AP Ng, AZ Holik, ML Asselin-Labat, ME Ritchie, ... NAR Genomics and Bioinformatics 2 (3), lqaa073, 2020 | 31 | 2020 |
| CellBench: R/Bioconductor software for comparing single-cell RNA-seq analysis methods S Su, L Tian, X Dong, PF Hickey, S Freytag, ME Ritchie Bioinformatics 36 (7), 2288-2290, 2020 | 18 | 2020 |
| shRNA-seq data analysis with edgeR Z Dai, JM Sheridan, LJ Gearing, DL Moore, S Su, RA Dickins, ME Blewitt, ... F1000Research 3 (95), 95, 2014 | 13 | 2014 |
| NanoMethViz: An R/Bioconductor package for visualizing long-read methylation data S Su, Q Gouil, ME Blewitt, D Cook, PF Hickey, ME Ritchie PLOS Computational Biology 17 (10), e1009524, 2021 | 12 | 2021 |
